Job ID = 16433010 SRX = SRX10925641 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 20770353 spots for SRR14580031/SRR14580031.sra Written 20770353 spots for SRR14580031/SRR14580031.sra fastq に変換しました。 bowtie でマッピング中... Your job 16434282 ("srTce11") has been submitted Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:07:04 20770353 reads; of these: 20770353 (100.00%) were unpaired; of these: 5848596 (28.16%) aligned 0 times 10772840 (51.87%) aligned exactly 1 time 4148917 (19.98%) aligned >1 times 71.84% overall alignment rate Time searching: 00:07:04 Overall time: 00:07:04 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 7 sequences. [bam_sort_core] merging from 8 files... [bam_rmdupse_core] 4004891 / 14921757 = 0.2684 in library ' ' BAM に変換しました。 Bed ファイルを作成中... WARNING: Skipping mount /opt/pkg/singularity/3.8.7/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 02 Aug 2022 09:50:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX10925641/SRX10925641.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX10925641/SRX10925641.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX10925641/SRX10925641.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX10925641/SRX10925641.bam'] # control file = None # effective genome size = 9.00e+07 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-05 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Tue, 02 Aug 2022 09:50:58: #1 read tag files... INFO @ Tue, 02 Aug 2022 09:50:58: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 09:51:06: 1000000 INFO @ Tue, 02 Aug 2022 09:51:13: 2000000 INFO @ Tue, 02 Aug 2022 09:51:21: 3000000 WARNING: Skipping mount /opt/pkg/singularity/3.8.7/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 02 Aug 2022 09:51:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX10925641/SRX10925641.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX10925641/SRX10925641.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX10925641/SRX10925641.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX10925641/SRX10925641.bam'] # control file = None # effective genome size = 9.00e+07 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-10 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Tue, 02 Aug 2022 09:51:28: #1 read tag files... INFO @ Tue, 02 Aug 2022 09:51:28: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 09:51:31: 4000000 INFO @ Tue, 02 Aug 2022 09:51:38: 1000000 INFO @ Tue, 02 Aug 2022 09:51:41: 5000000 INFO @ Tue, 02 Aug 2022 09:51:49: 2000000 INFO @ Tue, 02 Aug 2022 09:51:51: 6000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.8.7/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 02 Aug 2022 09:51:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX10925641/SRX10925641.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX10925641/SRX10925641.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX10925641/SRX10925641.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX10925641/SRX10925641.bam'] # control file = None # effective genome size = 9.00e+07 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-20 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Tue, 02 Aug 2022 09:51:58: #1 read tag files... INFO @ Tue, 02 Aug 2022 09:51:58: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 09:51:59: 3000000 INFO @ Tue, 02 Aug 2022 09:52:01: 7000000 INFO @ Tue, 02 Aug 2022 09:52:10: 4000000 INFO @ Tue, 02 Aug 2022 09:52:11: 1000000 INFO @ Tue, 02 Aug 2022 09:52:11: 8000000 INFO @ Tue, 02 Aug 2022 09:52:21: 5000000 INFO @ Tue, 02 Aug 2022 09:52:22: 9000000 INFO @ Tue, 02 Aug 2022 09:52:23: 2000000 INFO @ Tue, 02 Aug 2022 09:52:32: 10000000 INFO @ Tue, 02 Aug 2022 09:52:33: 6000000 INFO @ Tue, 02 Aug 2022 09:52:36: 3000000 INFO @ Tue, 02 Aug 2022 09:52:43: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 09:52:43: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 09:52:43: #1 total tags in treatment: 10916866 INFO @ Tue, 02 Aug 2022 09:52:43: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 09:52:43: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 02 Aug 2022 09:52:43: #1 tags after filtering in treatment: 10916866 INFO @ Tue, 02 Aug 2022 09:52:43: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 09:52:43: #1 finished! INFO @ Tue, 02 Aug 2022 09:52:43: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 09:52:43: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 09:52:44: #2 number of paired peaks: 3421 INFO @ Tue, 02 Aug 2022 09:52:44: start model_add_line... INFO @ Tue, 02 Aug 2022 09:52:44: start X-correlation... INFO @ Tue, 02 Aug 2022 09:52:44: end of X-cor INFO @ Tue, 02 Aug 2022 09:52:44: #2 finished! INFO @ Tue, 02 Aug 2022 09:52:44: #2 predicted fragment length is 202 bps INFO @ Tue, 02 Aug 2022 09:52:44: #2 alternative fragment length(s) may be 4,202 bps INFO @ Tue, 02 Aug 2022 09:52:44: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX10925641/SRX10925641.05_model.r INFO @ Tue, 02 Aug 2022 09:52:44: 7000000 INFO @ Tue, 02 Aug 2022 09:52:44: #3 Call peaks... INFO @ Tue, 02 Aug 2022 09:52:44: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 09:52:49: 4000000 INFO @ Tue, 02 Aug 2022 09:52:55: 8000000 INFO @ Tue, 02 Aug 2022 09:53:03: 5000000 INFO @ Tue, 02 Aug 2022 09:53:07: 9000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 02 Aug 2022 09:53:15: 6000000 INFO @ Tue, 02 Aug 2022 09:53:17: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 09:53:18: 10000000 INFO @ Tue, 02 Aug 2022 09:53:28: 7000000 INFO @ Tue, 02 Aug 2022 09:53:28: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 09:53:28: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 09:53:28: #1 total tags in treatment: 10916866 INFO @ Tue, 02 Aug 2022 09:53:28: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 09:53:28: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 02 Aug 2022 09:53:28: #1 tags after filtering in treatment: 10916866 INFO @ Tue, 02 Aug 2022 09:53:28: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 09:53:28: #1 finished! INFO @ Tue, 02 Aug 2022 09:53:28: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 09:53:28: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 09:53:29: #2 number of paired peaks: 3421 INFO @ Tue, 02 Aug 2022 09:53:29: start model_add_line... INFO @ Tue, 02 Aug 2022 09:53:30: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX10925641/SRX10925641.05_peaks.xls INFO @ Tue, 02 Aug 2022 09:53:30: start X-correlation... INFO @ Tue, 02 Aug 2022 09:53:30: end of X-cor INFO @ Tue, 02 Aug 2022 09:53:30: #2 finished! INFO @ Tue, 02 Aug 2022 09:53:30: #2 predicted fragment length is 202 bps INFO @ Tue, 02 Aug 2022 09:53:30: #2 alternative fragment length(s) may be 4,202 bps INFO @ Tue, 02 Aug 2022 09:53:30: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX10925641/SRX10925641.10_model.r INFO @ Tue, 02 Aug 2022 09:53:30: #3 Call peaks... INFO @ Tue, 02 Aug 2022 09:53:30: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 09:53:30: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX10925641/SRX10925641.05_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 09:53:30: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX10925641/SRX10925641.05_summits.bed INFO @ Tue, 02 Aug 2022 09:53:30: Done! pass1 - making usageList (6 chroms): 3 millis pass2 - checking and writing primary data (21348 records, 4 fields): 44 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Tue, 02 Aug 2022 09:53:40: 8000000 INFO @ Tue, 02 Aug 2022 09:53:52: 9000000 INFO @ Tue, 02 Aug 2022 09:54:02: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 09:54:04: 10000000 INFO @ Tue, 02 Aug 2022 09:54:15: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX10925641/SRX10925641.10_peaks.xls INFO @ Tue, 02 Aug 2022 09:54:15: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX10925641/SRX10925641.10_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 09:54:15: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX10925641/SRX10925641.10_summits.bed INFO @ Tue, 02 Aug 2022 09:54:15: Done! INFO @ Tue, 02 Aug 2022 09:54:15: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 09:54:15: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 09:54:15: #1 total tags in treatment: 10916866 INFO @ Tue, 02 Aug 2022 09:54:15: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 09:54:15: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) pass1 - making usageList (6 chroms): 3 millis INFO @ Tue, 02 Aug 2022 09:54:15: #1 tags after filtering in treatment: 10916866 INFO @ Tue, 02 Aug 2022 09:54:15: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 09:54:15: #1 finished! INFO @ Tue, 02 Aug 2022 09:54:15: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 09:54:15: #2 looking for paired plus/minus strand peaks... pass2 - checking and writing primary data (13937 records, 4 fields): 32 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 09:54:16: #2 number of paired peaks: 3421 INFO @ Tue, 02 Aug 2022 09:54:16: start model_add_line... INFO @ Tue, 02 Aug 2022 09:54:17: start X-correlation... INFO @ Tue, 02 Aug 2022 09:54:17: end of X-cor INFO @ Tue, 02 Aug 2022 09:54:17: #2 finished! INFO @ Tue, 02 Aug 2022 09:54:17: #2 predicted fragment length is 202 bps INFO @ Tue, 02 Aug 2022 09:54:17: #2 alternative fragment length(s) may be 4,202 bps INFO @ Tue, 02 Aug 2022 09:54:17: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX10925641/SRX10925641.20_model.r INFO @ Tue, 02 Aug 2022 09:54:17: #3 Call peaks... INFO @ Tue, 02 Aug 2022 09:54:17: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 09:54:49: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 09:55:00: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX10925641/SRX10925641.20_peaks.xls INFO @ Tue, 02 Aug 2022 09:55:01: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX10925641/SRX10925641.20_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 09:55:01: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX10925641/SRX10925641.20_summits.bed INFO @ Tue, 02 Aug 2022 09:55:01: Done! pass1 - making usageList (6 chroms): 2 millis pass2 - checking and writing primary data (6358 records, 4 fields): 45 millis CompletedMACS2peakCalling